Dataset Information

FIND-IT: Accelerated trait development for a green evolution.

ABSTRACT: Improved agricultural and industrial production organisms are required to meet the future global food demands and minimize the effects of climate change. A new resource for crop and microbe improvement, designated FIND-IT (Fast Identification of Nucleotide variants by droplet DigITal PCR), provides ultrafast identification and isolation of predetermined, targeted genetic variants in a screening cycle of less than 10 days. Using large-scale sample pooling in combination with droplet digital PCR (ddPCR) greatly increases the size of low-mutation density and screenable variant libraries and the probability of identifying the variant of interest. The method is validated by screening variant libraries totaling 500,000 barley (Hordeum vulgare) individuals and isolating more than 125 targeted barley gene knockout lines and miRNA or promoter variants enabling functional gene analysis. FIND-IT variants are directly applicable to elite breeding pipelines and minimize time-consuming technical steps to accelerate the evolution of germplasm.

SUBMITTER: Knudsen S

PROVIDER: S-EPMC9401622 | biostudies-literature | 2022 Aug

REPOSITORIES: biostudies-literature

ACCESS DATA

Publications

FIND-IT: Accelerated trait development for a green evolution.

Knudsen Søren S Wendt Toni T Dockter Christoph C Thomsen Hanne Cecilie HC Rasmussen Magnus M Egevang Jørgensen Morten M Lu Qiongxian Q Voss Cynthia C Murozuka Emiko E Østerberg Jeppe Thulin JT Harholt Jesper J Braumann Ilka I Cuesta-Seijo Jose A JA Kale Sandip M SM Bodevin Sabrina S Tang Petersen Lise L Carciofi Massimiliano M Pedas Pai Rosager PR Opstrup Husum Jeppe J Nielsen Martin Toft Simmelsgaard MTS Nielsen Kasper K Jensen Mikkel K MK Møller Lillian Ambus LA Gojkovic Zoran Z Striebeck Alexander A Lengeler Klaus K Fennessy Ross T RT Katz Michael M Garcia Sanchez Rosa R Solodovnikova Natalia N Förster Jochen J Olsen Ole O Møller Birger Lindberg BL Fincher Geoffrey B GB Skadhauge Birgitte B

Science advances 20220824 34

Improved agricultural and industrial production organisms are required to meet the future global food demands and minimize the effects of climate change. A new resource for crop and microbe improvement, designated FIND-IT (Fast Identification of Nucleotide variants by droplet DigITal PCR), provides ultrafast identification and isolation of predetermined, targeted genetic variants in a screening cycle of less than 10 days. Using large-scale sample pooling in combination with droplet digital PCR ( ...[more]

PMID: 36001660

Similar Datasets

Project description:Background and Aims:The greater diversity of plant clades in the Neotropics compared to their relatives in Africa is a pervasive pattern in biogeography. To better understand the causes of this imbalance, we studied the diversification dynamics of the monocot family Velloziaceae. In addition to being conspicuously richer in the Neotropics compared to the Palaeotropics, many species of Velloziaceae exhibit extreme desiccation tolerance (i.e. 'resurrection' behaviour), and other ecological specializations to life on rocky outcrops, poor sandy soils, open vegetation and seasonally dry climates. Velloziaceae is also ecologically dominant in the campos rupestres, a habitat having exceptionally high plant diversity and endemism in Brazil. Methods:We reconstructed a densely sampled time-calibrated molecular phylogeny and used state-dependent and state-independent models to estimate rates of lineage diversification in relation to continent-scale geographical occurrence and functional traits associated with desiccation tolerance and water storage capacity. Key Results:Independent shifts to faster diversification occurred within two Neotropical lineages, Vellozia and Barbacenia. The Vellozia radiation was associated with the presence of conspicuous aerial stems, and was followed by decreasing diversification rates during the Oligocene, a time of rising global temperatures and expanding open areas around the world. The Barbacenia radiation was faster and more recent, occurring during the cooling conditions of the Miocene, and associated with the acquisition of aquiferous parenchyma on the leaves. Conclusions:High species richness of Velloziaceae in South America has been driven by faster diversification in lineages predominantly occurring in the campos rupestres, putatively by the evolution of adaptive strategies in response to independent climatic events. The radiation of Vellozia in particular might have played a key role in the assembly of the campos rupestres vegetation.

Dataset Information

FIND-IT: Accelerated trait development for a green evolution.

Publications

FIND-IT: Accelerated trait development for a green evolution.

Similar Datasets

OmicsDI is part of the ELIXIR infrastructure

Tweets